Job ID = 14170645 SRX = SRX9434467 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24630308 spots for SRR12982865/SRR12982865.sra Written 24630308 spots for SRR12982865/SRR12982865.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171076 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:27 24630308 reads; of these: 24630308 (100.00%) were unpaired; of these: 524754 (2.13%) aligned 0 times 18964404 (77.00%) aligned exactly 1 time 5141150 (20.87%) aligned >1 times 97.87% overall alignment rate Time searching: 00:06:27 Overall time: 00:06:27 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 8321026 / 24105554 = 0.3452 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:56:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 07:56:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:56:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:56:28: 1000000 INFO @ Sat, 11 Dec 2021 07:56:34: 2000000 INFO @ Sat, 11 Dec 2021 07:56:39: 3000000 INFO @ Sat, 11 Dec 2021 07:56:44: 4000000 INFO @ Sat, 11 Dec 2021 07:56:50: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:56:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 07:56:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:56:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:56:56: 6000000 INFO @ Sat, 11 Dec 2021 07:57:00: 1000000 INFO @ Sat, 11 Dec 2021 07:57:03: 7000000 INFO @ Sat, 11 Dec 2021 07:57:08: 2000000 INFO @ Sat, 11 Dec 2021 07:57:10: 8000000 INFO @ Sat, 11 Dec 2021 07:57:16: 3000000 INFO @ Sat, 11 Dec 2021 07:57:17: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:57:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 07:57:22: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:57:22: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:57:24: 4000000 INFO @ Sat, 11 Dec 2021 07:57:24: 10000000 INFO @ Sat, 11 Dec 2021 07:57:30: 1000000 INFO @ Sat, 11 Dec 2021 07:57:31: 11000000 INFO @ Sat, 11 Dec 2021 07:57:31: 5000000 INFO @ Sat, 11 Dec 2021 07:57:38: 2000000 INFO @ Sat, 11 Dec 2021 07:57:38: 12000000 INFO @ Sat, 11 Dec 2021 07:57:39: 6000000 INFO @ Sat, 11 Dec 2021 07:57:45: 3000000 INFO @ Sat, 11 Dec 2021 07:57:45: 13000000 INFO @ Sat, 11 Dec 2021 07:57:47: 7000000 INFO @ Sat, 11 Dec 2021 07:57:52: 14000000 INFO @ Sat, 11 Dec 2021 07:57:53: 4000000 INFO @ Sat, 11 Dec 2021 07:57:55: 8000000 INFO @ Sat, 11 Dec 2021 07:57:59: 15000000 INFO @ Sat, 11 Dec 2021 07:58:00: 5000000 INFO @ Sat, 11 Dec 2021 07:58:03: 9000000 INFO @ Sat, 11 Dec 2021 07:58:05: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:58:05: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:58:05: #1 total tags in treatment: 15784528 INFO @ Sat, 11 Dec 2021 07:58:05: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:58:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:58:05: #1 tags after filtering in treatment: 15784528 INFO @ Sat, 11 Dec 2021 07:58:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:58:05: #1 finished! INFO @ Sat, 11 Dec 2021 07:58:05: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:58:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:58:07: #2 number of paired peaks: 8954 INFO @ Sat, 11 Dec 2021 07:58:07: start model_add_line... INFO @ Sat, 11 Dec 2021 07:58:07: start X-correlation... INFO @ Sat, 11 Dec 2021 07:58:07: end of X-cor INFO @ Sat, 11 Dec 2021 07:58:07: #2 finished! INFO @ Sat, 11 Dec 2021 07:58:07: #2 predicted fragment length is 105 bps INFO @ Sat, 11 Dec 2021 07:58:07: #2 alternative fragment length(s) may be 105 bps INFO @ Sat, 11 Dec 2021 07:58:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.05_model.r INFO @ Sat, 11 Dec 2021 07:58:07: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:58:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:58:08: 6000000 INFO @ Sat, 11 Dec 2021 07:58:10: 10000000 INFO @ Sat, 11 Dec 2021 07:58:15: 7000000 INFO @ Sat, 11 Dec 2021 07:58:18: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:58:23: 8000000 INFO @ Sat, 11 Dec 2021 07:58:26: 12000000 INFO @ Sat, 11 Dec 2021 07:58:30: 9000000 INFO @ Sat, 11 Dec 2021 07:58:34: 13000000 INFO @ Sat, 11 Dec 2021 07:58:38: 10000000 INFO @ Sat, 11 Dec 2021 07:58:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:58:42: 14000000 INFO @ Sat, 11 Dec 2021 07:58:46: 11000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:58:49: 15000000 INFO @ Sat, 11 Dec 2021 07:58:54: 12000000 INFO @ Sat, 11 Dec 2021 07:58:55: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:58:55: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:58:55: #1 total tags in treatment: 15784528 INFO @ Sat, 11 Dec 2021 07:58:55: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:58:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:58:56: #1 tags after filtering in treatment: 15784528 INFO @ Sat, 11 Dec 2021 07:58:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:58:56: #1 finished! INFO @ Sat, 11 Dec 2021 07:58:56: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:58:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:58:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:58:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:58:57: #2 number of paired peaks: 8954 INFO @ Sat, 11 Dec 2021 07:58:57: start model_add_line... INFO @ Sat, 11 Dec 2021 07:58:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.05_summits.bed INFO @ Sat, 11 Dec 2021 07:58:57: Done! INFO @ Sat, 11 Dec 2021 07:58:58: start X-correlation... INFO @ Sat, 11 Dec 2021 07:58:58: end of X-cor INFO @ Sat, 11 Dec 2021 07:58:58: #2 finished! INFO @ Sat, 11 Dec 2021 07:58:58: #2 predicted fragment length is 105 bps INFO @ Sat, 11 Dec 2021 07:58:58: #2 alternative fragment length(s) may be 105 bps INFO @ Sat, 11 Dec 2021 07:58:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.10_model.r INFO @ Sat, 11 Dec 2021 07:58:58: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:58:58: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (11828 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:59:01: 13000000 INFO @ Sat, 11 Dec 2021 07:59:08: 14000000 INFO @ Sat, 11 Dec 2021 07:59:14: 15000000 INFO @ Sat, 11 Dec 2021 07:59:20: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:59:20: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:59:20: #1 total tags in treatment: 15784528 INFO @ Sat, 11 Dec 2021 07:59:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:59:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:59:20: #1 tags after filtering in treatment: 15784528 INFO @ Sat, 11 Dec 2021 07:59:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:59:20: #1 finished! INFO @ Sat, 11 Dec 2021 07:59:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:59:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:59:21: #2 number of paired peaks: 8954 INFO @ Sat, 11 Dec 2021 07:59:21: start model_add_line... INFO @ Sat, 11 Dec 2021 07:59:22: start X-correlation... INFO @ Sat, 11 Dec 2021 07:59:22: end of X-cor INFO @ Sat, 11 Dec 2021 07:59:22: #2 finished! INFO @ Sat, 11 Dec 2021 07:59:22: #2 predicted fragment length is 105 bps INFO @ Sat, 11 Dec 2021 07:59:22: #2 alternative fragment length(s) may be 105 bps INFO @ Sat, 11 Dec 2021 07:59:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.20_model.r INFO @ Sat, 11 Dec 2021 07:59:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:59:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:59:32: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:59:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:59:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:59:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.10_summits.bed INFO @ Sat, 11 Dec 2021 07:59:50: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (9706 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:59:55: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:00:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:00:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:00:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434467/SRX9434467.20_summits.bed INFO @ Sat, 11 Dec 2021 08:00:12: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (7025 records, 4 fields): 27 millis CompletedMACS2peakCalling